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An open-source Cytoscape application that models the effects of small binding molecules in pathways in Systems Biology Graphical Notation
An open-source Cytoscape application that models the effects of small binding molecules in pathways in Systems Biology Graphical Notation
Introduction:
Introduction:
PathInsight is an open-source Cytoscape application created to aid in modeling the upstream and downstream signaling effects of small molecule binders in a biological pathway. Users may perturb a given system and observe the affected pathway under various user-defined conditions.
PathInsight is developed and maintained by Aarya Venkat of the Gilson Lab at UCSD.
Installation (two methods):
Installation (two methods):
1. Either download from http://apps.cytoscape.org/apps/pathinsight
2. Or open Cytoscape. Click on Apps > App Manager > PathInsight
- Version Preview (1.1.0):
New in this version is the algorithm's ability to model SBGN pathways. Systems Biology Graphical Notation (SBGN) is a new format for pathway representation, created to maintain visual consistency in research.
To Do List:
- Add better designs for dual-state functionality
- Add Uniprot and BindingDB functions - for ease of access to binding data for all nodes
- Add Glycobiology notations
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